Strain Fitness in Variovorax sp. SCN45 around GFF2003

Experiment: Community=Locust bean gum; Passage=1

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Only strains with sufficient reads to estimate fitness are shown, but the strain fitness values are still rather noisy and may be biased towards zero. Strains near the edge of a gene are not shown as being associated with that gene (they are in grey). Strains in the central 10-90% of a gene are color coded by the insertion's strand. Usually, "+" means that the selectable marker is encoded on the forward strand, i.e., transcribed rightward.

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500 ntGFF2001 and GFF2002 are separated by 54 nucleotidesGFF2002 and GFF2003 are separated by 101 nucleotidesGFF2003 and GFF2004 overlap by 4 nucleotidesGFF2004 and GFF2005 overlap by 4 nucleotides GFF2001 - Putative phosphatase YieH, at 45,838 to 46,530 GFF2001 GFF2002 - Thioredoxin related protein PA2694, at 46,585 to 46,911 GFF2002 GFF2003 - D-3-phosphoglycerate dehydrogenase (EC 1.1.1.95), at 47,013 to 48,014 GFF2003 GFF2004 - no description, at 48,011 to 48,466 GFF2004 GFF2005 - Transcriptional regulator, AraC family, at 48,463 to 49,491 GFF2005 Position (kb) 47 48 49Strain fitness (log2 ratio) -2 -1 0 1 2at 46.294 kb on + strand, within GFF2001at 46.294 kb on + strand, within GFF2001at 46.294 kb on + strand, within GFF2001at 46.294 kb on + strand, within GFF2001at 46.294 kb on + strand, within GFF2001at 46.294 kb on + strand, within GFF2001at 46.295 kb on - strand, within GFF2001at 46.295 kb on - strand, within GFF2001at 46.295 kb on - strand, within GFF2001at 46.295 kb on - strand, within GFF2001at 46.295 kb on - strand, within GFF2001at 46.405 kb on + strand, within GFF2001at 46.597 kb on + strandat 46.598 kb on - strandat 46.598 kb on - strandat 46.598 kb on - strandat 46.727 kb on - strand, within GFF2002at 46.727 kb on - strand, within GFF2002at 46.967 kb on + strandat 46.968 kb on - strandat 46.968 kb on - strandat 46.968 kb on - strandat 47.033 kb on - strandat 47.043 kb on + strandat 47.043 kb on + strandat 47.044 kb on - strandat 47.253 kb on + strand, within GFF2003at 47.253 kb on + strand, within GFF2003at 47.332 kb on - strand, within GFF2003at 47.466 kb on + strand, within GFF2003at 47.466 kb on + strand, within GFF2003at 47.466 kb on + strand, within GFF2003at 47.466 kb on + strand, within GFF2003at 47.466 kb on + strand, within GFF2003at 47.466 kb on + strand, within GFF2003at 47.467 kb on - strand, within GFF2003at 47.467 kb on - strand, within GFF2003at 47.467 kb on - strand, within GFF2003at 47.467 kb on - strand, within GFF2003at 47.472 kb on + strand, within GFF2003at 47.802 kb on + strand, within GFF2003at 47.880 kb on + strand, within GFF2003at 47.881 kb on - strand, within GFF2003at 47.898 kb on + strand, within GFF2003at 47.898 kb on + strand, within GFF2003at 47.898 kb on + strand, within GFF2003at 47.898 kb on + strand, within GFF2003at 47.899 kb on - strand, within GFF2003at 47.899 kb on - strand, within GFF2003at 48.293 kb on + strand, within GFF2004at 48.293 kb on + strand, within GFF2004at 48.293 kb on + strand, within GFF2004at 48.293 kb on + strand, within GFF2004at 48.293 kb on + strand, within GFF2004at 48.293 kb on + strand, within GFF2004at 48.293 kb on + strand, within GFF2004at 48.293 kb on + strand, within GFF2004at 48.294 kb on - strand, within GFF2004at 48.294 kb on - strand, within GFF2004at 48.294 kb on - strand, within GFF2004at 48.341 kb on + strand, within GFF2004at 48.341 kb on + strand, within GFF2004at 48.350 kb on + strand, within GFF2004at 48.350 kb on + strand, within GFF2004at 48.351 kb on - strand, within GFF2004at 48.351 kb on - strand, within GFF2004at 48.362 kb on + strand, within GFF2004at 48.362 kb on + strand, within GFF2004at 48.362 kb on + strand, within GFF2004at 48.362 kb on + strand, within GFF2004at 48.362 kb on + strand, within GFF2004at 48.363 kb on - strand, within GFF2004at 48.363 kb on - strand, within GFF2004at 48.363 kb on - strand, within GFF2004at 48.368 kb on + strand, within GFF2004at 48.377 kb on + strand, within GFF2004at 48.378 kb on - strand, within GFF2004at 48.378 kb on - strand, within GFF2004at 48.464 kb on + strandat 48.465 kb on - strandat 48.465 kb on - strandat 48.788 kb on + strand, within GFF2005at 48.938 kb on + strand, within GFF2005at 48.939 kb on - strand, within GFF2005at 48.939 kb on - strand, within GFF2005

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Per-strain Table

Position Strand Gene LocusTag Fraction Community=Locust bean gum; Passage=1
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46,294 + GFF2001 0.66 -1.2
46,294 + GFF2001 0.66 -0.1
46,294 + GFF2001 0.66 +2.2
46,294 + GFF2001 0.66 +0.5
46,294 + GFF2001 0.66 +1.0
46,294 + GFF2001 0.66 +0.5
46,295 - GFF2001 0.66 +0.3
46,295 - GFF2001 0.66 +0.1
46,295 - GFF2001 0.66 -0.5
46,295 - GFF2001 0.66 -1.2
46,295 - GFF2001 0.66 +0.8
46,405 + GFF2001 0.82 +1.1
46,597 + -1.5
46,598 - -0.3
46,598 - +0.6
46,598 - -0.2
46,727 - GFF2002 0.43 -1.6
46,727 - GFF2002 0.43 -0.2
46,967 + +0.1
46,968 - +0.2
46,968 - -0.5
46,968 - +0.3
47,033 - -0.4
47,043 + -0.4
47,043 + +0.0
47,044 - +0.2
47,253 + GFF2003 0.24 -0.6
47,253 + GFF2003 0.24 -1.1
47,332 - GFF2003 0.32 -0.0
47,466 + GFF2003 0.45 +1.2
47,466 + GFF2003 0.45 +1.2
47,466 + GFF2003 0.45 +1.8
47,466 + GFF2003 0.45 -1.9
47,466 + GFF2003 0.45 -0.1
47,466 + GFF2003 0.45 +0.2
47,467 - GFF2003 0.45 +0.8
47,467 - GFF2003 0.45 -0.2
47,467 - GFF2003 0.45 -0.2
47,467 - GFF2003 0.45 +0.4
47,472 + GFF2003 0.46 -0.2
47,802 + GFF2003 0.79 +0.3
47,880 + GFF2003 0.87 -0.0
47,881 - GFF2003 0.87 -1.8
47,898 + GFF2003 0.88 -0.7
47,898 + GFF2003 0.88 +0.0
47,898 + GFF2003 0.88 +0.1
47,898 + GFF2003 0.88 -0.8
47,899 - GFF2003 0.88 +1.2
47,899 - GFF2003 0.88 -0.8
48,293 + GFF2004 0.62 -1.4
48,293 + GFF2004 0.62 +0.2
48,293 + GFF2004 0.62 +0.2
48,293 + GFF2004 0.62 +0.0
48,293 + GFF2004 0.62 -2.1
48,293 + GFF2004 0.62 -0.5
48,293 + GFF2004 0.62 -0.2
48,293 + GFF2004 0.62 -0.7
48,294 - GFF2004 0.62 +0.8
48,294 - GFF2004 0.62 +0.8
48,294 - GFF2004 0.62 -0.5
48,341 + GFF2004 0.72 +0.2
48,341 + GFF2004 0.72 -0.5
48,350 + GFF2004 0.74 -0.8
48,350 + GFF2004 0.74 +0.8
48,351 - GFF2004 0.75 +0.1
48,351 - GFF2004 0.75 -0.2
48,362 + GFF2004 0.77 -0.7
48,362 + GFF2004 0.77 -0.1
48,362 + GFF2004 0.77 +0.4
48,362 + GFF2004 0.77 +1.2
48,362 + GFF2004 0.77 -0.6
48,363 - GFF2004 0.77 +0.2
48,363 - GFF2004 0.77 +0.1
48,363 - GFF2004 0.77 -1.1
48,368 + GFF2004 0.78 +0.8
48,377 + GFF2004 0.80 -0.3
48,378 - GFF2004 0.80 +0.5
48,378 - GFF2004 0.80 +0.3
48,464 + +0.0
48,465 - +0.3
48,465 - -0.1
48,788 + GFF2005 0.32 -0.4
48,938 + GFF2005 0.46 +0.9
48,939 - GFF2005 0.46 -0.7
48,939 - GFF2005 0.46 -2.2

Or see this region's nucleotide sequence